IFT74 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005533
Fusion event
HBV-IFT74 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
1826
Orient
+
Integrated sequence
GGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTC| |ACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATT
Host Sequence
Chromosome
chr9
Cytoband
p21.2
Reference genome
GRCh37/hg19
Start
27054993/27054995 (Hg38)
End
27054993/27054995 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
FRA9C
Target gene
IFT74
miRNAs that regulate target gene
hsa-mir-103a-3p ; hsa-mir-16-5p ; hsa-mir-15a-5p ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-6738-3p ; hsa-mir-544a ; hsa-mir-6071 ; hsa-mir-6828-3p ; hsa-mir-590-3p
Nearest miRNA
hsa-mir-101-2/Upstream/5542810; hsa-let-7a-1/Downstream/1808631;
Nearest TSS
ENST00000422679/Upstream/26187; ENST00000522960/Downstream/47635;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/98223, chr9-CpG: 27/Downstream/473364
Upstream sequence
AATGAGGTGGTGAGACTAAATCAGCAAATGAGAAGCAAAAAACATCCTAACAGCAATTATTCAACAGCCGCTAAAATTTGCAAAAGATGCCAGTATCTCC
Downstream sequence
tgaatctacaacctatagtaaataaaatgtctttaaacaaacataaagcaagattatgtattggctaattgactaaaatgtgactaaaggctcacaggaa
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).
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